Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 54 of 438
Found at i:13871815 original size:29 final size:31
Alignment explanation
Indices: 13871778--13871841 Score: 87
Period size: 29 Copynumber: 2.1 Consensus size: 31
13871768 AAATTAATAT
* *
13871778 ATTTTAATAAAATATTTAATTA-AT-TTTAA
1 ATTTAAATAAAATATTTAAATACATATTTAA
*
13871807 ATTTAAATAAATTATTTAAATACATATTTAA
1 ATTTAAATAAAATATTTAAATACATATTTAA
13871838 ATTT
1 ATTT
13871842 TAATCTAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 19 0.63
30 2 0.07
31 9 0.30
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (31 bp):
ATTTAAATAAAATATTTAAATACATATTTAA
Found at i:13871836 original size:12 final size:13
Alignment explanation
Indices: 13871807--13871839 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
13871797 TTAATTTTAA
13871807 ATTTAAATAAATT
1 ATTTAAATAAATT
*
13871820 ATTTAAATACA-T
1 ATTTAAATAAATT
13871832 ATTTAAAT
1 ATTTAAAT
13871840 TTTAATCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTTAAATAAATT
Found at i:13873473 original size:3 final size:3
Alignment explanation
Indices: 13873465--13873526 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
13873455 CTCCAATCAT
13873465 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13873513 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
13873527 TTTACTTTTA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13878953 original size:12 final size:12
Alignment explanation
Indices: 13878936--13878968 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
13878926 AAAAATTTAA
13878936 TTTAATAATTAT
1 TTTAATAATTAT
13878948 TTTAATAA-TAT
1 TTTAATAATTAT
*
13878959 TTTATTAATT
1 TTTAATAATT
13878969 TAATAGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTAATAATTAT
Found at i:13878970 original size:19 final size:19
Alignment explanation
Indices: 13878943--13878979 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13878933 TAATTTAATA
*
13878943 ATTATTTTAATAATATTTT
1 ATTAATTTAATAATATTTT
*
13878962 ATTAATTTAATAGTATTT
1 ATTAATTTAATAATATTT
13878980 AATTTTTGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
ATTAATTTAATAATATTTT
Found at i:13879832 original size:12 final size:12
Alignment explanation
Indices: 13879815--13879844 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
13879805 TTCGTTTTAG
13879815 TTTTTATATTAA
1 TTTTTATATTAA
*
13879827 TTTTTATTTTAA
1 TTTTTATATTAA
13879839 TTTTTA
1 TTTTTA
13879845 GACTTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTTATATTAA
Found at i:13879853 original size:24 final size:24
Alignment explanation
Indices: 13879809--13879854 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
13879799 GCTTGGTTCG
* *
13879809 TTTTAGTTTTTATATTAATTTTTA
1 TTTTAATTTTTAGATTAATTTTTA
13879833 TTTTAATTTTTAGACTT-ATTTT
1 TTTTAATTTTTAGA-TTAATTTT
13879855 AATAAAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.70
Consensus pattern (24 bp):
TTTTAATTTTTAGATTAATTTTTA
Found at i:13880589 original size:56 final size:56
Alignment explanation
Indices: 13880524--13880636 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
13880514 GAGTGTTATG
13880524 TATGTGAGAACTTTTAAGAAAATTTAAAATATTATTTTTTTACTTTAAATAAATTA
1 TATGTGAGAACTTTTAAGAAAATTTAAAATATTATTTTTTTACTTTAAATAAATTA
13880580 TATGTGAGAACTTTTAAGAAAATTTAAAATATTATTTTTTTACTTTAAATAAATTA
1 TATGTGAGAACTTTTAAGAAAATTTAAAATATTATTTTTTTACTTTAAATAAATTA
13880636 T
1 T
13880637 TCTCATCAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (56 bp):
TATGTGAGAACTTTTAAGAAAATTTAAAATATTATTTTTTTACTTTAAATAAATTA
Found at i:13881655 original size:3 final size:3
Alignment explanation
Indices: 13881649--13881673 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13881639 ACACTACTAT
13881649 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
13881674 ATATAGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:13881724 original size:93 final size:90
Alignment explanation
Indices: 13881554--13881741 Score: 197
Period size: 93 Copynumber: 2.1 Consensus size: 90
13881544 ATTGGGTTGG
* * * *
13881554 ATATAATGATAATAATAATAATATTAAAGTAAAGTAAATAATAATACTATATATAAAAATATATA
1 ATATAATAATAATAATAATAATAATAAAGTAAAGTAAATAATAAAACAATATATAAAAATATATA
* * *
13881619 TATGTATATAATAGAAATACACACTACT
66 AATGTAAATAATA-AAA-A-ACAATACT
*
13881647 ATATAATAATAATAATAATAATAATAAA-TATAG-AAATACA-AAAAGCAAATATAATAAAAATA
1 ATATAATAATAATAATAATAATAATAAAGTAAAGTAAATA-ATAAAA-C-AATAT-ATAAAAATA
13881709 T-TAAAT-TAAAGTAATAAAAAACAATACT
62 TATAAATGTAAA-TAATAAAAAACAATACT
13881737 ATATA
1 ATATA
13881742 TAAATATATA
Statistics
Matches: 82, Mismatches: 8, Indels: 13
0.80 0.08 0.13
Matches are distributed among these distances:
90 12 0.15
91 9 0.11
92 12 0.15
93 39 0.48
94 10 0.12
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (90 bp):
ATATAATAATAATAATAATAATAATAAAGTAAAGTAAATAATAAAACAATATATAAAAATATATA
AATGTAAATAATAAAAAACAATACT
Found at i:13882007 original size:3 final size:3
Alignment explanation
Indices: 13881994--13882076 Score: 50
Period size: 3 Copynumber: 27.3 Consensus size: 3
13881984 GAGGGTATAT
13881994 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* * *
13882038 ACA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
13882077 AAAAAATAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
2 9 0.14
3 43 0.68
4 9 0.14
5 2 0.03
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:13882018 original size:12 final size:12
Alignment explanation
Indices: 13881994--13882077 Score: 75
Period size: 12 Copynumber: 6.8 Consensus size: 12
13881984 GAGGGTATAT
13881994 ATAATAT-AATA
1 ATAATATAAATA
13882005 ATAATATAAATA
1 ATAATATAAATA
13882017 ATAATATATACATGA
1 ATAATATA-A-AT-A
13882032 GA-AATA-ACAATA
1 -ATAATATA-AATA
13882044 ATAATATAAATA
1 ATAATATAAATA
* *
13882056 ATAGTAAAAATA
1 ATAATATAAATA
*
13882068 ATAAAATAAA
1 ATAATATAAA
13882078 AAAAATAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
11 8 0.13
12 38 0.63
13 4 0.07
14 4 0.07
15 5 0.08
16 1 0.02
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:13882038 original size:21 final size:18
Alignment explanation
Indices: 13881999--13882058 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
13881989 TATATATAAT
*
13881999 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
13882017 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
* *
13882038 ACAATAATAATATAAATA
1 ATAATAATAATAGAAATA
13882056 ATA
1 ATA
13882059 GTAAAAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 14 0.40
19 5 0.14
20 5 0.14
21 11 0.31
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:13882608 original size:30 final size:29
Alignment explanation
Indices: 13882574--13882659 Score: 118
Period size: 30 Copynumber: 2.9 Consensus size: 29
13882564 ATTTGATGGT
* *
13882574 GTAGGTACAAGTAGGAGACAAGGTGGTGGA
1 GTAGGTGCAAGT-GGAGGCAAGGTGGTGGA
*
13882604 GTAGGTGCAAGTGAGAGGCAAAGTGGTGGA
1 GTAGGTGCAAGTG-GAGGCAAGGTGGTGGA
13882634 GTAGGTGCAAGTGGGAGGCAAGGTGG
1 GTAGGTGCAAGT-GGAGGCAAGGTGG
13882660 CTAGGGTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.02
30 48 0.96
31 1 0.02
ACGTcount: A:0.29, C:0.07, G:0.48, T:0.16
Consensus pattern (29 bp):
GTAGGTGCAAGTGGAGGCAAGGTGGTGGA
Found at i:13883205 original size:25 final size:26
Alignment explanation
Indices: 13883177--13883231 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
13883167 CAACATTCAT
13883177 AATAAT-GTAAATATTATT-AAAATCA
1 AATAATAGTAAA-ATTATTGAAAATCA
13883202 AATAATAGTAAAATTATTGAAAATCA
1 AATAATAGTAAAATTATTGAAAATCA
13883228 AATA
1 AATA
13883232 GTAATAGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 12 0.43
26 16 0.57
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (26 bp):
AATAATAGTAAAATTATTGAAAATCA
Found at i:13883334 original size:20 final size:20
Alignment explanation
Indices: 13883311--13883348 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13883301 AAATAATGCT
13883311 AAAATATAATTTTTTTTCAA
1 AAAATATAATTTTTTTTCAA
*
13883331 AAAATATGATTTTTTTTC
1 AAAATATAATTTTTTTTC
13883349 CCAATAATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (20 bp):
AAAATATAATTTTTTTTCAA
Found at i:13886091 original size:28 final size:28
Alignment explanation
Indices: 13886059--13886146 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 28
13886049 TTAATTTAAC
13886059 TATAAAATGTATTTATTTTCTTTTAAGT
1 TATAAAATGTATTTATTTTCTTTTAAGT
* * ** *
13886087 TAT-AAATTTA-TAATATTTAATTTAA-C
1 TATAAAATGTATTTAT-TTTCTTTTAAGT
*
13886113 TGTAAAATGTATTTATTTTCTTTTAAGT
1 TATAAAATGTATTTATTTTCTTTTAAGT
13886141 TATAAA
1 TATAAA
13886147 TTTATACATT
Statistics
Matches: 44, Mismatches: 12, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
26 5 0.11
27 28 0.64
28 11 0.25
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (28 bp):
TATAAAATGTATTTATTTTCTTTTAAGT
Found at i:13886104 original size:54 final size:54
Alignment explanation
Indices: 13886045--13886152 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
13886035 ATAAAAAATG
13886045 ATATTTAATTTAACTATAAAATGTATTTATTTTCTTTTAAGTTATAAATTTATA
1 ATATTTAATTTAACTATAAAATGTATTTATTTTCTTTTAAGTTATAAATTTATA
*
13886099 ATATTTAATTTAACTGTAAAATGTATTTATTTTCTTTTAAGTTATAAATTTATA
1 ATATTTAATTTAACTATAAAATGTATTTATTTTCTTTTAAGTTATAAATTTATA
13886153 CATTAGAGAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.54
Consensus pattern (54 bp):
ATATTTAATTTAACTATAAAATGTATTTATTTTCTTTTAAGTTATAAATTTATA
Found at i:13886291 original size:15 final size:16
Alignment explanation
Indices: 13886253--13886295 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
13886243 TGATTTTAAC
*
13886253 ATTATATTTAAAATAAA
1 ATTATATTT-ATATAAA
*
13886270 ATAATATTTATAT-AA
1 ATTATATTTATATAAA
13886285 ATTATATTTAT
1 ATTATATTTAT
13886296 TTAATTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 12 0.52
16 3 0.13
17 8 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTATATTTATATAAA
Found at i:13886728 original size:31 final size:31
Alignment explanation
Indices: 13886690--13886778 Score: 106
Period size: 31 Copynumber: 2.9 Consensus size: 31
13886680 ATATGGCCCT
*
13886690 TGAACTTGACACGTATGTTCACATTGGCTCC
1 TGAACTTGACAAGTATGTTCACATTGGCTCC
* *
13886721 TGAACTTGGCAAGTATGTTCACATTGGCTTC
1 TGAACTTGACAAGTATGTTCACATTGGCTCC
* * * * *
13886752 TAAACTTGATAACTAGGTTCACTTTGG
1 TGAACTTGACAAGTATGTTCACATTGG
13886779 TACTTGTACT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (31 bp):
TGAACTTGACAAGTATGTTCACATTGGCTCC
Found at i:13891086 original size:28 final size:28
Alignment explanation
Indices: 13891046--13891099 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
13891036 TAACTTAGCA
13891046 TTCATATCATGCAGGATAAATAAATTCC
1 TTCATATCATGCAGGATAAATAAATTCC
13891074 TTCATATCATGCAGGATAAATAAATT
1 TTCATATCATGCAGGATAAATAAATT
13891100 TTTTACAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (28 bp):
TTCATATCATGCAGGATAAATAAATTCC
Found at i:13891618 original size:40 final size:40
Alignment explanation
Indices: 13891563--13891645 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
13891553 TTCATGCACA
*
13891563 CAAGAATTCATGCACATAAATTGTCC-GGGTAAAGTACGTG
1 CAAGAATCCATGCACATAAATT-TCCTGGGTAAAGTACGTG
*
13891603 CAAGAATCCATGCACATAAGTTTCCTGGGTAAAGTACGTG
1 CAAGAATCCATGCACATAAATTTCCTGGGTAAAGTACGTG
13891643 CAA
1 CAA
13891646 CTGAAGATGT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
39 3 0.08
40 37 0.93
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAGAATCCATGCACATAAATTTCCTGGGTAAAGTACGTG
Found at i:13899169 original size:7 final size:7
Alignment explanation
Indices: 13899128--13899177 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
13899118 GTAATAGTTA
13899128 ACTAACT
1 ACTAACT
13899135 A-TAACT
1 ACTAACT
13899141 ACCATAACT
1 A-C-TAACT
13899150 ACTAAGCT
1 ACTAA-CT
13899158 -CTAACT
1 ACTAACT
*
13899164 ATTAACT
1 ACTAACT
13899171 ACTAACT
1 ACTAACT
13899178 GCCATAACCG
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
6 8 0.22
7 19 0.53
8 3 0.08
9 6 0.17
ACGTcount: A:0.42, C:0.26, G:0.02, T:0.30
Consensus pattern (7 bp):
ACTAACT
Found at i:13901428 original size:25 final size:24
Alignment explanation
Indices: 13901400--13901453 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
13901390 ATATAGAAAG
*
13901400 AAATAACAAAGATTTTTATACTAAT
1 AAATAACAAAGA-TATTATACTAAT
* * *
13901425 AAATATCAAATATATTATGCTAAT
1 AAATAACAAAGATATTATACTAAT
13901449 AAATA
1 AAATA
13901454 CTAAATATTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAACAAAGATATTATACTAAT
Found at i:13901447 original size:24 final size:24
Alignment explanation
Indices: 13901415--13901461 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
13901405 ACAAAGATTT
13901415 TTATACTAATAAATA-TCAAATATA
1 TTATACTAATAAATACT-AAATATA
*
13901439 TTATGCTAATAAATACTAAATAT
1 TTATACTAATAAATACTAAATAT
13901462 TCTAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (24 bp):
TTATACTAATAAATACTAAATATA
Found at i:13901476 original size:2 final size:2
Alignment explanation
Indices: 13901469--13901496 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13901459 TATTCTAAAA
13901469 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13901497 TTTATAAACG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13925289 original size:19 final size:19
Alignment explanation
Indices: 13925265--13925303 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
13925255 AGTACACATT
*
13925265 TTTGTAACATTCAATTTGA
1 TTTGTAACACTCAATTTGA
13925284 TTTGTAACACTCAATTTGA
1 TTTGTAACACTCAATTTGA
13925303 T
1 T
13925304 AAGATTCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (19 bp):
TTTGTAACACTCAATTTGA
Found at i:13928985 original size:29 final size:29
Alignment explanation
Indices: 13928943--13928999 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
13928933 AACTGTCGAT
* *
13928943 GCCACATGGTCATGTGCT-AGACCGTGTGA
1 GCCACACGGGCATGT-CTGAGACCGTGTGA
*
13928972 GCCACACGGGCATGTCTGAGACTGTGTG
1 GCCACACGGGCATGTCTGAGACCGTGTG
13929000 GGTGACACGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.19, C:0.25, G:0.33, T:0.23
Consensus pattern (29 bp):
GCCACACGGGCATGTCTGAGACCGTGTGA
Found at i:13935602 original size:5 final size:6
Alignment explanation
Indices: 13935584--13935610 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
13935574 AAGAGGTTGG
13935584 AATAAA AATAAA AATAAA AATAAA AAT
1 AATAAA AATAAA AATAAA AATAAA AAT
13935611 CAAGGGAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:13938527 original size:23 final size:23
Alignment explanation
Indices: 13938459--13938533 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 23
13938449 CCTGATCAGT
** *
13938459 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACGAGGTGCCTGAA
13938481 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACGAGGTGCCTGAA
*
13938501 ATACAACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTGAA
13938524 ATACGACACA
1 ATACGACACA
13938534 TAAAGTGCCT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.02
21 33 0.75
22 1 0.02
23 9 0.20
ACGTcount: A:0.40, C:0.27, G:0.20, T:0.13
Consensus pattern (23 bp):
ATACGACACACGAGGTGCCTGAA
Found at i:13938541 original size:23 final size:23
Alignment explanation
Indices: 13938459--13938545 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
13938449 CCTGATCAGT
*
13938459 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
13938481 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* * *
13938501 ATACAACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
13938524 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
13938546 TTGATAAAGC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
20 1 0.02
21 33 0.62
22 1 0.02
23 18 0.34
ACGTcount: A:0.39, C:0.25, G:0.21, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:13938941 original size:15 final size:15
Alignment explanation
Indices: 13938916--13938973 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
13938906 TCATGTATAT
13938916 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
13938932 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
13938947 AATAATTTCAATCAA
1 TATAAATTCAATCAA
13938962 TATAAATTCAAT
1 TATAAATTCAAT
13938974 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:13940256 original size:9 final size:9
Alignment explanation
Indices: 13940242--13940266 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13940232 TATATATACA
13940242 ATAATAACT
1 ATAATAACT
13940251 ATAATAACT
1 ATAATAACT
13940260 ATAATAA
1 ATAATAA
13940267 AAATATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (9 bp):
ATAATAACT
Found at i:13948014 original size:41 final size:41
Alignment explanation
Indices: 13947924--13948014 Score: 96
Period size: 41 Copynumber: 2.2 Consensus size: 41
13947914 ACCAGAGTGT
* * * * *
13947924 AAACAAGGGCATGTATGTGCTATTTAGAGGTACTGAAGTGC
1 AAACAGGGGCACGTATGTGCAATTTAGAGGTACTCAAGTAC
*
13947965 AAATAGGGGCACGTATGTGCAATTTAG-GAGTA-TCCAAGTAC
1 AAACAGGGGCACGTATGTGCAATTTAGAG-GTACT-CAAGTAC
13948006 AAACAGGGG
1 AAACAGGGG
13948015 ATAATTCAGC
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
40 2 0.05
41 39 0.95
ACGTcount: A:0.34, C:0.13, G:0.30, T:0.23
Consensus pattern (41 bp):
AAACAGGGGCACGTATGTGCAATTTAGAGGTACTCAAGTAC
Found at i:13951665 original size:13 final size:13
Alignment explanation
Indices: 13951647--13951682 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
13951637 GACCATGGCA
13951647 TCGATATGTGACT
1 TCGATATGTGACT
13951660 TCGATATGTGACT
1 TCGATATGTGACT
13951673 TCGATATGTG
1 TCGATATGTG
13951683 TTTACGAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.39
Consensus pattern (13 bp):
TCGATATGTGACT
Found at i:13954377 original size:39 final size:39
Alignment explanation
Indices: 13954329--13954486 Score: 208
Period size: 39 Copynumber: 4.1 Consensus size: 39
13954319 GCATGATATC
* *
13954329 GGGAATATATCCGAACATGAGGTCCGCAAGCTATATGCT
1 GGGAATATATCCGGACATGAGGTCCGCAGGCTATATGCT
*
13954368 GGGATTATATCCGGACATGAGGTCCGCAGGCTATATGCT
1 GGGAATATATCCGGACATGAGGTCCGCAGGCTATATGCT
* * *
13954407 GGGAATATATCCGGACTTGAAGTCCGCAGGCTATGTGCT
1 GGGAATATATCCGGACATGAGGTCCGCAGGCTATATGCT
* * * * * *
13954446 GGAAATATATCCAGACTTGAAGTCCGTAGGCTACATGCT
1 GGGAATATATCCGGACATGAGGTCCGCAGGCTATATGCT
13954485 GG
1 GG
13954487 AATGGAATCC
Statistics
Matches: 107, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 107 1.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (39 bp):
GGGAATATATCCGGACATGAGGTCCGCAGGCTATATGCT
Found at i:13961190 original size:39 final size:39
Alignment explanation
Indices: 13961035--13961184 Score: 219
Period size: 39 Copynumber: 3.8 Consensus size: 39
13961025 GCATGATATC
* * *
13961035 GGGAATATATCCGGACATGAGGTCCACAGGCTATATACT
1 GGGAATATATCCGGACATGAAGTCCGCAGGCTATATGCT
* *
13961074 GGGATTATATCCGGACATGAGGTCCGCAGGCTATATGCT
1 GGGAATATATCCGGACATGAAGTCCGCAGGCTATATGCT
* *
13961113 GGGAATATATCCGGACTTGAAGTCCGCAGGCTATGTGCT
1 GGGAATATATCCGGACATGAAGTCCGCAGGCTATATGCT
* *
13961152 GGAAATATATCCGGACTTGAAGTCCGCAGGCTA
1 GGGAATATATCCGGACATGAAGTCCGCAGGCTA
13961185 CGTGCTAGAA
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 103 1.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (39 bp):
GGGAATATATCCGGACATGAAGTCCGCAGGCTATATGCT
Found at i:13971337 original size:19 final size:20
Alignment explanation
Indices: 13971313--13971364 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
13971303 TATTATTTTA
*
13971313 TTATTTATTATT-ATTTGGT
1 TTATTTATTATTAATTTAGT
13971332 TTATTT-TTATTAGATTTAGT
1 TTATTTATTATTA-ATTTAGT
13971352 TTATTATATTATT
1 TTATT-TATTATT
13971365 GTTACTAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 5 0.18
19 6 0.21
20 11 0.39
21 1 0.04
22 5 0.18
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (20 bp):
TTATTTATTATTAATTTAGT
Found at i:13971341 original size:18 final size:16
Alignment explanation
Indices: 13971290--13971343 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 16
13971280 TCCAATTGCC
*
13971290 TTATCTTTTA-TTTTA
1 TTATTTTTTATTTTTA
13971305 TTATTTTATTATTTATTA
1 TTATTTT-TTATTT-TTA
13971323 TTATTTGGTTTATTTTTA
1 TTATTT--TTTATTTTTA
13971341 TTA
1 TTA
13971344 GATTTAGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
15 6 0.18
16 3 0.09
17 2 0.06
18 15 0.45
19 6 0.18
20 1 0.03
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (16 bp):
TTATTTTTTATTTTTA
Found at i:13971865 original size:2 final size:2
Alignment explanation
Indices: 13971858--13971892 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
13971848 AACCTAACTA
13971858 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13971893 ACACTTCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13973018 original size:12 final size:12
Alignment explanation
Indices: 13973001--13973025 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13972991 AAAAACACCA
13973001 TTGAAGCATATT
1 TTGAAGCATATT
13973013 TTGAAGCATATT
1 TTGAAGCATATT
13973025 T
1 T
13973026 CAATTAAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TTGAAGCATATT
Found at i:13973531 original size:40 final size:40
Alignment explanation
Indices: 13973476--13973556 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
13973466 AAGAGTGATA
13973476 TTAGCATAATTTAGGGATTTCTACAGATCAAGATACTAAG
1 TTAGCATAATTTAGGGATTTCTACAGATCAAGATACTAAG
13973516 TTAGCATAATTTAGGGATTTCTACAGATCAAGATACTAAG
1 TTAGCATAATTTAGGGATTTCTACAGATCAAGATACTAAG
13973556 T
1 T
13973557 GAAGAAATTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.33
Consensus pattern (40 bp):
TTAGCATAATTTAGGGATTTCTACAGATCAAGATACTAAG
Found at i:13984828 original size:3 final size:3
Alignment explanation
Indices: 13984820--13984863 Score: 79
Period size: 3 Copynumber: 14.3 Consensus size: 3
13984810 TTCCTATACT
13984820 TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA T
13984864 ATAGTAGTGC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13984833 original size:22 final size:22
Alignment explanation
Indices: 13984819--13984863 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
13984809 ATTCCTATAC
*
13984819 TTTATTATTATTATTATTATTA
1 TTTATTATTATTATTACTATTA
*
13984841 TTTATTATTATTATTATTATTA
1 TTTATTATTATTATTACTATTA
13984863 T
1 T
13984864 ATAGTAGTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTATTATTATTATTACTATTA
Found at i:13984845 original size:19 final size:19
Alignment explanation
Indices: 13984823--13984861 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
13984813 CTATACTTTA
13984823 TTATTATTATTATTATTAT
1 TTATTATTATTATTATTAT
13984842 TTATTATTATTATTATTAT
1 TTATTATTATTATTATTAT
13984861 T
1 T
13984862 ATATAGTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTATTATTATTATTATTAT
Found at i:13984901 original size:25 final size:23
Alignment explanation
Indices: 13984830--13984902 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 23
13984820 TTATTATTAT
* * * *
13984830 TATTATTATTATTTATTATTA-T
1 TATTATTATTATATAGTAATACA
* *
13984852 TATTATTATTATATAGTAGTGCA
1 TATTATTATTATATAGTAATACA
*
13984875 TATTTTTATTATATACGTAAATACA
1 TATTATTATTATATA-GT-AATACA
13984900 TAT
1 TAT
13984903 ATGTATATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
22 17 0.43
23 14 0.35
24 2 0.05
25 7 0.17
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55
Consensus pattern (23 bp):
TATTATTATTATATAGTAATACA
Found at i:13985119 original size:26 final size:24
Alignment explanation
Indices: 13985074--13985121 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
13985064 TATACTATAT
13985074 CTATTATTTATTAGCATTTTATTA
1 CTATTATTTATTAGCATTTTATTA
*
13985098 CTATTATTAGTATTAGCTTTTTAT
1 CTATTATT--TATTAGCATTTTAT
13985122 CAATACTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.38
26 13 0.62
ACGTcount: A:0.27, C:0.08, G:0.06, T:0.58
Consensus pattern (24 bp):
CTATTATTTATTAGCATTTTATTA
Found at i:13986151 original size:22 final size:22
Alignment explanation
Indices: 13986123--13986166 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
13986113 CGAGATGAGA
13986123 ATGTCTTAAACGTTCAAATGTT
1 ATGTCTTAAACGTTCAAATGTT
*
13986145 ATGTCTTTAACGTTCAAATGTT
1 ATGTCTTAAACGTTCAAATGTT
13986167 TTTTTACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (22 bp):
ATGTCTTAAACGTTCAAATGTT
Found at i:13997322 original size:64 final size:64
Alignment explanation
Indices: 13997221--13997405 Score: 298
Period size: 64 Copynumber: 2.9 Consensus size: 64
13997211 TCATTCGTGA
* *
13997221 CACATCTAGTTAGGAGCATTTGATTTATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATTTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* *
13997285 CACATTTAGCTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGATATAAGCAT
1 CACATTTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* * **
13997349 CACATTTAGTTAGGAGTATTTGATTCATTTCAATCATAGTGTCCTAATTATTTGACA
1 CACATTTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACA
13997406 CAAACACAGA
Statistics
Matches: 111, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 111 1.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (64 bp):
CACATTTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:13997592 original size:44 final size:45
Alignment explanation
Indices: 13997528--13997947 Score: 322
Period size: 44 Copynumber: 9.5 Consensus size: 45
13997518 ATTTACAGAT
**
13997528 CTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGATGATGGGC
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCTGAAGATGACAGGC
* * * **
13997572 CCTAACCCCCTAAGCAGTAGGGTAACAG-GCTGAAGATGTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCTGAAGATG-ACAGGC
**
13997617 CTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGATGATGGGC
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCTGAAGATGACAGGC
* * * * * ** **
13997661 CCTAACCCCCTAAGCAGTAGAGTAACAG-GCTGAA-TTTTCAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCTGAAGATGACAGGC
* * *
13997704 C-TCACCTCCCTAAGCAGTAGGGAAACAGATC-AAAGGTGACAGGC
1 CTTAACC-CCCTAAGCAGTAGGGAAACAGATCTGAAGATGACAGGC
* * * * * ***
13997748 CTTAACCCCCTAAACAGTAGGGTAATAG-GCTGAAGATTAACAAAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCTGAAGA-TGACAGGC
* * * * *
13997793 TTTAACCCCCTAAGTAGTAGGGAAACAGATC-AAAGGTGACAAGC
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCTGAAGATGACAGGC
* * * * **
13997837 CTTAACCCCCTAAACAGTAGGGTAACAG-GCTAAAGATTGACAAAC
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCTGAAGA-TGACAGGC
* * **
13997882 CTTAACCCCCTAAACAGTAGGGAAACAGATCAGAAG-TGATGGGC
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCTGAAGATGACAGGC
*
13997926 CTTAAACCCCTAAGCAGTAGGG
1 CTTAACCCCCTAAGCAGTAGGG
13997948 TCACAGGCTG
Statistics
Matches: 288, Mismatches: 74, Indels: 28
0.74 0.19 0.07
Matches are distributed among these distances:
42 4 0.01
43 28 0.10
44 147 0.51
45 103 0.36
46 6 0.02
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.18
Consensus pattern (45 bp):
CTTAACCCCCTAAGCAGTAGGGAAACAGATCTGAAGATGACAGGC
Found at i:13997641 original size:89 final size:88
Alignment explanation
Indices: 13997492--13997965 Score: 600
Period size: 89 Copynumber: 5.4 Consensus size: 88
13997482 AGCCTTATTT
13997492 CCCTAAGCAGTAGGGTAACAGGCT-AA-ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACA
1 CCCTAAGCAGTAGGGTAACAGGCTGAAGA-TTACAGATCTTAACCCCCTAAGCAGTAGGGAAACA
*
13997555 GATCGAAGATGATGGGCCCTAACC
65 GATCGAAGATGATGGGCCTTAACC
13997579 CCCTAAGCAGTAGGGTAACAGGCTGAAGATGTACAGATCTTAACCCCCTAAGCAGTAGGGAAACA
1 CCCTAAGCAGTAGGGTAACAGGCTGAAGAT-TACAGATCTTAACCCCCTAAGCAGTAGGGAAACA
*
13997644 GATCGAAGATGATGGGCCCTAACC
65 GATCGAAGATGATGGGCCTTAACC
* * * *
13997668 CCCTAAGCAGTAGAGTAACAGGCTGAA-TTTTCAGATC-TCACCTCCCTAAGCAGTAGGGAAACA
1 CCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAGATCTTAACC-CCCTAAGCAGTAGGGAAACA
* * **
13997731 GATCAAAGGTGACAGGCCTTAACC
65 GATCGAAGATGATGGGCCTTAACC
* * * * *
13997755 CCCTAAACAGTAGGGTAATAGGCTGAAGATTAACAAATTTTAACCCCCTAAGTAGTAGGGAAACA
1 CCCTAAGCAGTAGGGTAACAGGCTGAAGATT-ACAGATCTTAACCCCCTAAGCAGTAGGGAAACA
* * ***
13997820 GATCAAAGGTGACAAGCCTTAACC
65 GATCGAAGATGATGGGCCTTAACC
* * * * *
13997844 CCCTAAACAGTAGGGTAACAGGCTAAAGATTGACAAACCTTAACCCCCTAAACAGTAGGGAAACA
1 CCCTAAGCAGTAGGGTAACAGGCTGAAGATT-ACAGATCTTAACCCCCTAAGCAGTAGGGAAACA
*
13997909 GATCAGAAG-TGATGGGCCTTAAAC
65 GATC-GAAGATGATGGGCCTTAACC
*
13997933 CCCTAAGCAGTAGGGTCACAGGCTGGAA-ATTAC
1 CCCTAAGCAGTAGGGTAACAGGCT-GAAGATTAC
13997966 GAATCTCTTC
Statistics
Matches: 344, Mismatches: 34, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
86 4 0.01
87 94 0.27
88 8 0.02
89 229 0.67
90 9 0.03
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (88 bp):
CCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAG
ATCGAAGATGATGGGCCTTAACC
Found at i:13997800 original size:176 final size:176
Alignment explanation
Indices: 13997492--13997957 Score: 623
Period size: 176 Copynumber: 2.6 Consensus size: 176
13997482 AGCCTTATTT
13997492 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
1 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
* * * *
13997557 TCGAAGATGATGGGCCCTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATGTACAGATCTTAA
66 TCAAAGGTGATGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATGTACAAATCTTAA
* ***
13997622 CCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCCTAACC
131 CCCCCTAAGCAGTAGGGAAACAGATCAAAGATGACAAGCCCTAACC
* * * *
13997668 CCCTAAGCAGTAGAGTAACAGGCTGAATTTTCAGATC-TCACCTCCCTAAGCAGTAGGGAAACAG
1 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACC-CCCTAAGCAGTAGGGAAACAG
** * * *
13997732 ATCAAAGGTGACAGGCCTTAACCCCCTAAACAGTAGGGTAATAGGCTGAAGAT-TAACAAATTTT
65 ATCAAAGGTGATGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATGT-ACAAATCTT
* * *
13997796 AACCCCCTAAGTAGTAGGGAAACAGATCAAAGGTGACAAGCCTTAACC
129 AACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGACAAGCCCTAACC
* * * * *
13997844 CCCTAAACAGTAGGGTAACAGGCTAAAGATTGACAAACCTTAACCCCCTAAACAGTAGGGAAACA
1 CCCTAAGCAGTAGGGTAACAGGCT-AA-ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACA
* *
13997909 GATCAGAA-GTGATGGGCCTTAAACCCCTAAGCAGTAGGGTCACAGGCTG
64 GATCA-AAGGTGATGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTG
13997958 GAAATTACGA
Statistics
Matches: 249, Mismatches: 35, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
175 5 0.02
176 171 0.69
177 1 0.00
178 66 0.27
179 6 0.02
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (176 bp):
CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
TCAAAGGTGATGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATGTACAAATCTTAA
CCCCCTAAGCAGTAGGGAAACAGATCAAAGATGACAAGCCCTAACC
Found at i:13998400 original size:17 final size:18
Alignment explanation
Indices: 13998378--13998417 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
13998368 CCAAATTAAA
*
13998378 CCAAATAACCCC-AAAGC
1 CCAAATAACCCCTAAAAC
13998395 CCAAATAACCCCTAAAAC
1 CCAAATAACCCCTAAAAC
13998413 CCAAA
1 CCAAA
13998418 CAAACTCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.50, C:0.40, G:0.03, T:0.07
Consensus pattern (18 bp):
CCAAATAACCCCTAAAAC
Found at i:13999749 original size:9 final size:9
Alignment explanation
Indices: 13999732--13999785 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
13999722 TAAATGCCAT
13999732 TATTATTAC
1 TATTATTAC
*
13999741 TATTGTTAC
1 TATTATTAC
13999750 T-TCTATTAC
1 TAT-TATTAC
13999759 TATTATTAC
1 TATTATTAC
* *
13999768 TATTGTTAT
1 TATTATTAC
13999777 TATATATTA
1 TAT-TATTA
13999786 ATGTATGCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
8 1 0.03
9 31 0.84
10 5 0.14
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.57
Consensus pattern (9 bp):
TATTATTAC
Found at i:13999950 original size:25 final size:23
Alignment explanation
Indices: 13999901--13999951 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
13999891 TTATTATTAT
* *
13999901 TATTATTATTATATAGTAGTGCA
1 TATTATTATTATATAGTAATACA
*
13999924 TATTTTTATTATATACGTAAATACA
1 TATTATTATTATATA-GT-AATACA
13999949 TAT
1 TAT
13999952 ATGTATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 14 0.61
24 2 0.09
25 7 0.30
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.49
Consensus pattern (23 bp):
TATTATTATTATATAGTAATACA
Found at i:14003378 original size:21 final size:21
Alignment explanation
Indices: 14003319--14003386 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
14003309 AAACCTTGTA
*
14003319 ATATAAA-ATATATATGATA-T
1 ATATAAATA-ATATATTATAGT
14003339 GATATAAATAATATATTATAGT
1 -ATATAAATAATATATTATAGT
*
14003361 ATATAAATAATA-ATTTATATT
1 ATATAAATAATATA-TTATAGT
14003382 ATATA
1 ATATA
14003387 TTATATATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 1 0.02
21 39 0.93
22 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (21 bp):
ATATAAATAATATATTATAGT
Found at i:14004671 original size:81 final size:82
Alignment explanation
Indices: 14004517--14004704 Score: 306
Period size: 81 Copynumber: 2.3 Consensus size: 82
14004507 ATTAATGTCT
* * *
14004517 ATGCTGGTCAAGTCAATCCATACAGAAAATTAAAATTGTAAATTGAATGAAAATAGGTTGTAAAA
1 ATGCTGATCAAGTCAACCCATACAAAAAATTAAAATTGTAAATTGAATGAAAATAGGTTGTAAAA
14004582 TTGATTAAAGTCTATAA
66 TTGATTAAAGTCTATAA
* * *
14004599 ATGCTGCTCAAGTAAACCCATACAAAAAATTAAGATTGT-AATTGAATGAAAATAGGTTGTAAAA
1 ATGCTGATCAAGTCAACCCATACAAAAAATTAAAATTGTAAATTGAATGAAAATAGGTTGTAAAA
14004663 TTGATTAAAGTCTATAA
66 TTGATTAAAGTCTATAA
*
14004680 ATGTTGATCAAGTCAACCCATACAA
1 ATGCTGATCAAGTCAACCCATACAA
14004705 CCAAACATAA
Statistics
Matches: 98, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
81 64 0.65
82 34 0.35
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (82 bp):
ATGCTGATCAAGTCAACCCATACAAAAAATTAAAATTGTAAATTGAATGAAAATAGGTTGTAAAA
TTGATTAAAGTCTATAA
Found at i:14005003 original size:13 final size:13
Alignment explanation
Indices: 14004987--14005011 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14004977 TCATATTTTT
14004987 ATTTAAAAATTTA
1 ATTTAAAAATTTA
14005000 ATTTAAAAATTT
1 ATTTAAAAATTT
14005012 TCTGTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTAAAAATTTA
Found at i:14006139 original size:21 final size:22
Alignment explanation
Indices: 14006091--14006150 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
14006081 TCTTCGGTTC
* *
14006091 TTTTTCTTTCTTTCTATGTTCTT
1 TTTTTCTTT-TTCCTTTGTTCTT
*
14006114 CTTTTCTTTTTCCTTTGTT-TT
1 TTTTTCTTTTTCCTTTGTTCTT
14006135 TTTTT-TGTTTTCCTTT
1 TTTTTCT-TTTTCCTTT
14006151 CTTCACTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 15 0.47
22 8 0.25
23 8 0.25
ACGTcount: A:0.02, C:0.17, G:0.05, T:0.77
Consensus pattern (22 bp):
TTTTTCTTTTTCCTTTGTTCTT
Found at i:14008135 original size:22 final size:22
Alignment explanation
Indices: 14008095--14008137 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
14008085 TATCCAAATA
*
14008095 ATAACAACAAAAAAGTAGCAAT
1 ATAACAACAAAAAACTAGCAAT
* *
14008117 ATAACAACGAAATACTAGCAA
1 ATAACAACAAAAAACTAGCAA
14008138 AACAATGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.16, G:0.09, T:0.14
Consensus pattern (22 bp):
ATAACAACAAAAAACTAGCAAT
Found at i:14011586 original size:26 final size:26
Alignment explanation
Indices: 14011507--14011588 Score: 85
Period size: 26 Copynumber: 3.2 Consensus size: 26
14011497 TCTCATCCCT
*
14011507 ATTTTACCTTGAC-AAAATTTTGACG
1 ATTTTACCTTTACTAAAATTTTGACG
** ** *
14011532 ATTTTACCTTTGGTAAAATTTAAATG
1 ATTTTACCTTTACTAAAATTTTGACG
* *
14011558 ATTTTACTTTTACTAATATTTTGACG
1 ATTTTACCTTTACTAAAATTTTGACG
14011584 ATTTT
1 ATTTT
14011589 GCCCATGGTA
Statistics
Matches: 43, Mismatches: 13, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
25 10 0.23
26 33 0.77
ACGTcount: A:0.30, C:0.11, G:0.10, T:0.49
Consensus pattern (26 bp):
ATTTTACCTTTACTAAAATTTTGACG
Found at i:14028620 original size:19 final size:19
Alignment explanation
Indices: 14028596--14028637 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
14028586 TTCTAGATAG
*
14028596 CTCTCTTTGCTAAAATTTT
1 CTCTCTTTGCTAAAATTCT
14028615 CTCTCTTTGCTAAAATTCT
1 CTCTCTTTGCTAAAATTCT
14028634 CTCT
1 CTCT
14028638 TTAAAAGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.19, C:0.26, G:0.05, T:0.50
Consensus pattern (19 bp):
CTCTCTTTGCTAAAATTCT
Found at i:14032536 original size:49 final size:49
Alignment explanation
Indices: 14032476--14032684 Score: 341
Period size: 49 Copynumber: 4.3 Consensus size: 49
14032466 GTATGAGATA
*
14032476 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGAGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
14032525 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
14032574 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * * * * *
14032623 TATATATGTGATAAGGCCTAGTGGTCAACGTGATGGATGTGGAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
14032672 TA-A-ATGTGATAAG
1 TATATATGTGATAAG
14032685 TCCCGAAGGG
Statistics
Matches: 153, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
47 10 0.07
48 1 0.01
49 142 0.93
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:14034835 original size:40 final size:40
Alignment explanation
Indices: 14034780--14035122 Score: 551
Period size: 40 Copynumber: 8.8 Consensus size: 40
14034770 GAGAATTGAG
*
14034780 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
14034820 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
14034860 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA-------T
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
14034893 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATT--TGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
14034931 AGTGATGTATCCGGACTAAGTTCTGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
** *
14034971 AGTGACATATCCGGACTAAGTTCCGAGGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
14035011 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
14035051 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
14035091 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
14035123 ATCATGCTGG
Statistics
Matches: 284, Mismatches: 12, Indels: 14
0.92 0.04 0.05
Matches are distributed among these distances:
33 33 0.12
38 34 0.12
40 217 0.76
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:14035960 original size:40 final size:40
Alignment explanation
Indices: 14035866--14035978 Score: 156
Period size: 40 Copynumber: 2.8 Consensus size: 40
14035856 TTCGAATGGT
* * *
14035866 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGGCTAATTCCCGAAGGCATTTGTGC-GAGTGACTAA
*
14035907 ATCCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCT-AATTCCCGAAGGCATTTGTGCGAGTGACTAA
*
14035947 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGA
1 ATCCGGGCTAATTCCCGAAGGCATTTGTGCGA
14035979 ATCACTATGA
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
40 38 0.58
41 27 0.42
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAATTCCCGAAGGCATTTGTGCGAGTGACTAA
Found at i:14036004 original size:40 final size:40
Alignment explanation
Indices: 14035866--14036011 Score: 120
Period size: 40 Copynumber: 3.6 Consensus size: 40
14035856 TTCGAATGGT
** * *
14035866 ATCCGGGCTAAGT-CCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGGCTAA-TCCCCGAAGGCAATTGTGCGAA-TCACTAA
* * * *
14035907 ATCCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCT-AATCCCCGAAGGCAATTGTGCGAATCACTAA
* *
14035947 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATG
1 ATCCGGGCTAATCCCCGAAGGCAATTGTGCGAATCACTA-A
*
14035988 A-CCGGGCT-ATGCCCCGAAGACAAT
1 ATCCGGGCTAAT-CCCCGAAGGCAAT
14036012 CGAGTGAGTC
Statistics
Matches: 90, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
39 2 0.02
40 60 0.67
41 28 0.31
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAATCCCCGAAGGCAATTGTGCGAATCACTAA
Found at i:14038796 original size:49 final size:48
Alignment explanation
Indices: 14038736--14038933 Score: 306
Period size: 49 Copynumber: 4.0 Consensus size: 48
14038726 GTATGAGATA
*
14038736 TATATATGTGATAAGGCCTAATGGACGATGTGATGAATGAGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGG-CGATGTGATGAATGTGAAAGTGTG
14038785 TATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGC-GATGTGATGAATGTGAAAGTGTG
14038834 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGG-CGATGTGATGAATGTGAAAGTGTG
* * * * *
14038883 TATATATGTGATAAGGCCTAGTGGCCAACGTGATGGATGTGGAAGTGTG
1 TATATATGTGATAAGGCCTAATGG-CGATGTGATGAATGTGAAAGTGTG
14038932 TA
1 TA
14038934 AAAGTGATAA
Statistics
Matches: 141, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
48 1 0.01
49 139 0.99
50 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (48 bp):
TATATATGTGATAAGGCCTAATGGCGATGTGATGAATGTGAAAGTGTG
Found at i:14040953 original size:7 final size:7
Alignment explanation
Indices: 14040943--14040976 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
14040933 CACTTCTCAA
*
14040943 TCATCTC
1 TCATCCC
14040950 TCATCCC
1 TCATCCC
*
14040957 TCATCCT
1 TCATCCC
14040964 TCATCCC
1 TCATCCC
14040971 TCATCC
1 TCATCC
14040977 TTCAACATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.15, C:0.50, G:0.00, T:0.35
Consensus pattern (7 bp):
TCATCCC
Found at i:14040967 original size:14 final size:14
Alignment explanation
Indices: 14040950--14040980 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
14040940 CAATCATCTC
14040950 TCATCCCTCATCCT
1 TCATCCCTCATCCT
14040964 TCATCCCTCATCCT
1 TCATCCCTCATCCT
14040978 TCA
1 TCA
14040981 ACATTCCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.48, G:0.00, T:0.35
Consensus pattern (14 bp):
TCATCCCTCATCCT
Found at i:14040994 original size:21 final size:21
Alignment explanation
Indices: 14040943--14040994 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
14040933 CACTTCTCAA
* *
14040943 TCATCTCTCATCCCTCATCCT
1 TCATCTCTCATCCCTCAACAT
* *
14040964 TCATCCCTCATCCTTCAACAT
1 TCATCTCTCATCCCTCAACAT
*
14040985 TCCTCTCTCA
1 TCATCTCTCA
14040995 CTCTCACTAG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.17, C:0.46, G:0.00, T:0.37
Consensus pattern (21 bp):
TCATCTCTCATCCCTCAACAT
Found at i:14044301 original size:23 final size:23
Alignment explanation
Indices: 14044268--14044325 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
14044258 GCAACATGAT
*
14044268 CTTCCCTTTCCCTTCCCCTTCCC
1 CTTCCCCTTCCCTTCCCCTTCCC
**
14044291 CTTCCCCTTCCCTTTTCCTTCCC
1 CTTCCCCTTCCCTTCCCCTTCCC
14044314 CTTCCCCTTCCC
1 CTTCCCCTTCCC
14044326 CCATCCTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (23 bp):
CTTCCCCTTCCCTTCCCCTTCCC
Found at i:14044310 original size:29 final size:29
Alignment explanation
Indices: 14044268--14044326 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
14044258 GCAACATGAT
14044268 CTTCCCTTTCCCTTCCCCTTCCCCTTCCC
1 CTTCCCTTTCCCTTCCCCTTCCCCTTCCC
*
14044297 CTTCCCTTTTCCTTCCCCTTCCCCTTCCC
1 CTTCCCTTTCCCTTCCCCTTCCCCTTCCC
14044326 C
1 C
14044327 CATCCTTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (29 bp):
CTTCCCTTTCCCTTCCCCTTCCCCTTCCC
Found at i:14044323 original size:6 final size:6
Alignment explanation
Indices: 14044271--14044326 Score: 78
Period size: 6 Copynumber: 9.5 Consensus size: 6
14044261 ACATGATCTT
* * *
14044271 CCCTTT CCCTTC CCCTTC CCCTTC CCCTT- CCCTTT TCCTTC CCCTTC
1 CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC
14044318 CCCTTC CCC
1 CCCTTC CCC
14044327 CATCCTTTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
5 5 0.11
6 40 0.89
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (6 bp):
CCCTTC
Found at i:14044332 original size:23 final size:23
Alignment explanation
Indices: 14044284--14044333 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
14044274 TTTCCCTTCC
***
14044284 CCTTCCCCTTCCCCTTCCCTTTT
1 CCTTCCCCTTCCCCTTCCCCCAT
14044307 CCTTCCCCTTCCCCTTCCCCCAT
1 CCTTCCCCTTCCCCTTCCCCCAT
14044330 CCTT
1 CCTT
14044334 TTCGGTAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.02, C:0.60, G:0.00, T:0.38
Consensus pattern (23 bp):
CCTTCCCCTTCCCCTTCCCCCAT
Found at i:14044333 original size:29 final size:29
Alignment explanation
Indices: 14044270--14044336 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
14044260 AACATGATCT
* *
14044270 TCCCTTTCCCTTCCCCTTCCCCTTCCCCT
1 TCCCTTTTCCTTCCCCTTCCCCTTCCCCA
14044299 TCCCTTTTCCTTCCCCTTCCCCTTCCCCCA
1 TCCCTTTTCCTTCCCCTTCCCCTT-CCCCA
14044329 T-CCTTTTC
1 TCCCTTTTC
14044337 GGTAAGAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 30 0.86
30 5 0.14
ACGTcount: A:0.01, C:0.58, G:0.00, T:0.40
Consensus pattern (29 bp):
TCCCTTTTCCTTCCCCTTCCCCTTCCCCA
Found at i:14049462 original size:23 final size:23
Alignment explanation
Indices: 14049434--14049481 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
14049424 ACCTAATATT
*
14049434 TAAAAAAACTAAAAAAAAATAAAA
1 TAAAATAA-TAAAAAAAAATAAAA
* *
14049458 TAAAATAATAAAGAAAACTAAAA
1 TAAAATAATAAAAAAAAATAAAA
14049481 T
1 T
14049482 TAATATCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (23 bp):
TAAAATAATAAAAAAAAATAAAA
Found at i:14054287 original size:43 final size:42
Alignment explanation
Indices: 14054155--14054305 Score: 203
Period size: 42 Copynumber: 3.6 Consensus size: 42
14054145 CTAAAACTAT
*
14054155 GTGTAAGACCATATCTGGGATATGGCATCAATATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTC
* *
14054197 GTGTAAGACCATATCTGGGATATAGCATCGATGTGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTC
* * * **
14054239 GTGTAAGACCATAACTGGGCTATTGGCATCGATACGAGATCCC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATTTC
* *
14054282 ATGTAAGACCATATCTGAGATATG
1 GTGTAAGACCATATCTGGGATATG
14054306 ACACTGGTAT
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 61 0.65
43 33 0.35
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTC
Found at i:14056906 original size:33 final size:32
Alignment explanation
Indices: 14056869--14056946 Score: 93
Period size: 33 Copynumber: 2.4 Consensus size: 32
14056859 TGGTCCAATC
* * * *
14056869 ATGGTCTTACGTCCATAGTGCCATAACCCAGTT
1 ATGGTCTTACAT-CAGAATGCCATAACCCAGCT
*
14056902 ATGGTCTTATCATCAGAATGCCATAGCCCAGCT
1 ATGGTCTTA-CATCAGAATGCCATAACCCAGCT
14056935 ATGGTCTTACAT
1 ATGGTCTTACAT
14056947 ATAAACACTG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
32 3 0.08
33 34 0.87
34 2 0.05
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (32 bp):
ATGGTCTTACATCAGAATGCCATAACCCAGCT
Found at i:14056959 original size:101 final size:101
Alignment explanation
Indices: 14056783--14056974 Score: 321
Period size: 101 Copynumber: 1.9 Consensus size: 101
14056773 TTTACATTTG
* * * *
14056783 TAGTGCCATAACCCGGTTATGGTTTTATCATCAGAATGTCATAGCCCACCTATGGTCTTAGATAT
1 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCACCTATGGTCTTACATAT
* *
14056848 AAACATTGCCATGGTCCAATCATGGTCTTACGTCCA
66 AAACACTGCCATGGTCCAACCATGGTCTTACGTCCA
*
14056884 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATAT
1 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCACCTATGGTCTTACATAT
14056949 AAACACTGCCATGGTCCAACCATGGT
66 AAACACTGCCATGGTCCAACCATGGT
14056975 TTTATGTTTG
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 84 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (101 bp):
TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCACCTATGGTCTTACATAT
AAACACTGCCATGGTCCAACCATGGTCTTACGTCCA
Found at i:14070842 original size:15 final size:14
Alignment explanation
Indices: 14070821--14071051 Score: 85
Period size: 14 Copynumber: 16.4 Consensus size: 14
14070811 ACCTTATTTT
14070821 TATATTATATATTA
1 TATATTATATATTA
*
14070835 TATAATTATTTATTA
1 TAT-ATTATATATTA
14070850 TATATTATTTATATTA
1 TATATTA--TATATTA
* *
14070866 -GTATTATTTATTA
1 TATATTATATATTA
* **
14070879 TATATTACTTTTCACAA
1 TATATTA--TAT-ATTA
* *
14070896 AATATTAT-TATTT
1 TATATTATATATTA
*
14070909 TACATTAT-TATTTA
1 TATATTATATA-TTA
14070923 TATATTAT-TATTA
1 TATATTATATATTA
*
14070936 TAT-TT-T-TACTTG
1 TATATTATATA-TTA
*
14070948 TATAATATAT-TTA
1 TATATTATATATTA
*
14070961 T-TAATTATTTA-TA
1 TAT-ATTATATATTA
14070974 TATATTATATTATT-
1 TATATTATA-TATTA
* *
14070988 TTTACATATATACTT-
1 TATA-TTATATA-TTA
*
14071003 TCATATTATATTATAA
1 T-ATATTATA-TATTA
*
14071019 T-TATTTTATATTA
1 TATATTATATATTA
14071032 TAT-TTATACTATTA
1 TATATTATA-TATTA
14071046 TATATT
1 TATATT
14071052 TTTTTATCTA
Statistics
Matches: 163, Mismatches: 29, Indels: 49
0.68 0.12 0.20
Matches are distributed among these distances:
11 3 0.02
12 8 0.05
13 47 0.29
14 48 0.29
15 35 0.21
16 14 0.09
17 8 0.05
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (14 bp):
TATATTATATATTA
Found at i:14070849 original size:22 final size:22
Alignment explanation
Indices: 14070823--14070883 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
14070813 CTTATTTTTA
*
14070823 TATTATATATTATATA-ATTATT
1 TATTATATATTATATATATTA-G
*
14070845 TATTATATATTATTTATATTAG
1 TATTATATATTATATATATTAG
*
14070867 TATTATTTATTATATAT
1 TATTATATATTATATAT
14070884 TACTTTTCAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 30 0.88
23 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
TATTATATATTATATATATTAG
Found at i:14070930 original size:11 final size:11
Alignment explanation
Indices: 14070914--14071051 Score: 62
Period size: 11 Copynumber: 12.4 Consensus size: 11
14070904 TATTTTACAT
14070914 TATTATTTATA
1 TATTATTTATA
14070925 TATTATTATTATA
1 TATTA-T-TTATA
*
14070938 TTTTTACTTGTATA
1 -TATTA-TT-TATA
14070952 -ATATATTTAT-
1 TAT-TATTTATA
14070962 TAATTATTTATA
1 T-ATTATTTATA
14070974 TA-TA-TTATA
1 TATTATTTATA
*
14070983 TTATT-TTTACA
1 -TATTATTTATA
*
14070994 TATATACTTT-CA
1 TAT-TA-TTTATA
14071006 TATTATATTATA
1 TATTAT-TTATA
14071018 -ATTATTT-TA
1 TATTATTTATA
14071027 TATTATATT-TA
1 TATTAT-TTATA
*
14071038 TACTA-TTATA
1 TATTATTTATA
14071048 TATT
1 TATT
14071052 TTTTTATCTA
Statistics
Matches: 101, Mismatches: 7, Indels: 39
0.69 0.05 0.27
Matches are distributed among these distances:
9 9 0.09
10 20 0.20
11 39 0.39
12 13 0.13
13 11 0.11
14 9 0.09
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.60
Consensus pattern (11 bp):
TATTATTTATA
Found at i:14070937 original size:113 final size:115
Alignment explanation
Indices: 14070814--14071051 Score: 267
Period size: 113 Copynumber: 2.1 Consensus size: 115
14070804 ATTTTTAACC
* *
14070814 TTATTTTTATATTATATA-TTATATAAT-TATTTATT-A-TATATTATTTATATTAGTATTATTT
1 TTATTATTATATT-TATACTTATATAATATATTTATTAATTAT-TTATATATATTA-TATTATTT
* *
14070875 ATTATATAT-TACTTTTCACA-A-AATATTATTATTTTACATTATTATTTATA-TA
63 -TTACATATATAC-TTTCACATATAATATAATTATTTTACATTA-TATTTATACTA
* *
14070927 TTATTATTATATTTTTACTTGTATAATATATTTATTAATTATTTATATATATTATATTATTTTTA
1 TTATTATTATATTTATACTTATATAATATATTTATTAATTATTTATATATATTATATTATTTTTA
* * *
14070992 CATATATACTTTCATATTATATTATAATTATTTTATATTATATTTATACTA
66 CATATATACTTTCACA-TATAATATAATTATTTTACATTATATTTATACTA
14071043 TTATATATT
1 TTAT-TATT
14071052 TTTTTATCTA
Statistics
Matches: 106, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
112 3 0.03
113 33 0.31
114 19 0.18
115 21 0.20
116 26 0.25
117 4 0.04
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.60
Consensus pattern (115 bp):
TTATTATTATATTTATACTTATATAATATATTTATTAATTATTTATATATATTATATTATTTTTA
CATATATACTTTCACATATAATATAATTATTTTACATTATATTTATACTA
Found at i:14071016 original size:48 final size:47
Alignment explanation
Indices: 14070912--14071077 Score: 125
Period size: 48 Copynumber: 3.5 Consensus size: 47
14070902 ATTATTTTAC
* *
14070912 ATTATTATTTATATATTATTAT-TATATTTTTACTTGTATAATATATTT
1 ATTATTATTTATATA-TATTATAT-TATTTTTACATATATAATATATTT
* *
14070960 ATTAATTATTTATATATATTATATTATTTTTACATATATACTTTCATATT
1 ATT-ATTATTTATATATATTATATTATTTTTACATATATAATAT-AT-TT
* *
14071010 A-TATTA-TAAT-TATTTTATATTATATTTATAC-TAT-T-ATATATTT
1 ATTATTATTTATATATATTATATTAT-TTT-TACATATATAATATATTT
*
14071053 -TT-TTATCTATATATTATTATCATTA
1 ATTATTATTTATATA-TATTAT-ATTA
14071078 AAGGTTTTAA
Statistics
Matches: 96, Mismatches: 11, Indels: 24
0.73 0.08 0.18
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 4 0.04
45 7 0.07
46 17 0.18
47 9 0.09
48 32 0.33
49 16 0.17
50 3 0.03
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (47 bp):
ATTATTATTTATATATATTATATTATTTTTACATATATAATATATTT
Found at i:14071029 original size:16 final size:16
Alignment explanation
Indices: 14071008--14071038 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14070998 TACTTTCATA
14071008 TTATATTATAATTATT
1 TTATATTATAATTATT
*
14071024 TTATATTATATTTAT
1 TTATATTATAATTAT
14071039 ACTATTATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATATTATAATTATT
Found at i:14071055 original size:113 final size:113
Alignment explanation
Indices: 14070835--14071051 Score: 264
Period size: 116 Copynumber: 1.9 Consensus size: 113
14070825 TTATATATTA
* *
14070835 TATAATTATTTATTATATATTATTTATATTAGTATTATTTATTATATATTACTTTTCACAAAATA
1 TATAATTATTTATTATATATTATATATATTAGTATTATTTATTACATATTACTTTTCACAAAATA
*
14070900 TTATTATTTTACATTATTATTTATATATTATTATTATATTTTTACTTG
66 TAATTATTTTACATTATTATTTATATATTATTATTATATTTTTACTTG
*
14070948 TATAATATATTTATTA-ATTATTTATATATATTA-TATTATTT-TTACATATATAC-TTTCATAT
1 TATAAT-TATTTATTATA-TA-TTATATATATTAGTATTATTTATTACATAT-TACTTTTCACA-
* *
14071009 TATATTATAATTATTTTATATTA-TATTTATACTATTATATATT
61 -A-AATATAATTATTTTACATTATTATTTATA-TATTAT-TATT
14071052 TTTTTATCTA
Statistics
Matches: 89, Mismatches: 6, Indels: 14
0.82 0.06 0.13
Matches are distributed among these distances:
113 20 0.22
114 22 0.25
115 20 0.22
116 23 0.26
117 4 0.04
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (113 bp):
TATAATTATTTATTATATATTATATATATTAGTATTATTTATTACATATTACTTTTCACAAAATA
TAATTATTTTACATTATTATTTATATATTATTATTATATTTTTACTTG
Found at i:14071236 original size:21 final size:23
Alignment explanation
Indices: 14071211--14071269 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
14071201 ATAATTAATT
*
14071211 ACTTATTTTATAT-TATTCTA-A
1 ACTTATTTTATATATATTATATA
14071232 ACTTATATTTATATATATTATATA
1 ACTTAT-TTTATATATATTATATA
14071256 A-TTATTTTAT-TATA
1 ACTTATTTTATATATA
14071270 AATATAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
21 10 0.29
22 12 0.35
23 10 0.29
24 2 0.06
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (23 bp):
ACTTATTTTATATATATTATATA
Found at i:14071343 original size:18 final size:19
Alignment explanation
Indices: 14071322--14071368 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
14071312 TTCTAAACCA
14071322 ATATATTTTTTATT-TTAT
1 ATATATTTTTTATTCTTAT
* * *
14071340 ATATAATTATTATTCTTTT
1 ATATATTTTTTATTCTTAT
*
14071359 ATAAATTTTT
1 ATATATTTTT
14071369 GTTATTATAT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (19 bp):
ATATATTTTTTATTCTTAT
Found at i:14082739 original size:14 final size:14
Alignment explanation
Indices: 14082722--14082751 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
14082712 TCTTCCATTA
14082722 TTCTTTAAAGTATG
1 TTCTTTAAAGTATG
14082736 TTCTTTAAAGTATG
1 TTCTTTAAAGTATG
14082750 TT
1 TT
14082752 GCATCGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.53
Consensus pattern (14 bp):
TTCTTTAAAGTATG
Found at i:14083922 original size:206 final size:206
Alignment explanation
Indices: 14083256--14084005 Score: 1148
Period size: 205 Copynumber: 3.7 Consensus size: 206
14083246 CTGAAGCAAT
** *
14083256 ATCCAAGATGGTTCAGCATCCTTGTGCTTACAAGGAGA-AAATCGAAGACATAGCTGATTTGGTT
1 ATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGA-ACAAATCGAAGACATAGCTGATTTGGCT
* *
14083320 TTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATATCTGTATTGTCAGAGAACAAAT
65 TTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAAT
* *
14083385 TGAAGTCCGGCATCT-C-TGCTTCGACGGAGGGCAGACACATAGCAGATCCAACCTTCAGATGTT
130 CGAAGTCTGGCATCTCCAT-CTTCGACGGAGGGCAGACACATAGCAGATCCAACCTTCAGATGTT
*
14083448 TATACTGAAGTAG
194 TATACTAAAGTAG
* *
14083461 ATCCAAGATGGTTTGGCATCCTTTTGCTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTT
1 ATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTT
** *
14083526 TCACGTGCTTACATTGAAGCAAATCTAAGATAATTTGGCATCTCTGTATTGTCAGAGAACAAATC
66 TCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
14083591 GAAGTCTGGCATCTCCA-CTTCGACGGAGGGCAGACACATAGCAGATCCAACCTTCAGATGTTTA
131 GAAGTCTGGCATCTCCATCTTCGACGGAGGGCAGACACATAGCAGATCCAACCTTCAGATGTTTA
14083655 TACTAAAGTAG
196 TACTAAAGTAG
* * * *
14083666 ATCCAAGATGGTTTGGTATCCTTGTGATTACAAGGAACAAATCAAAGACATAGCTGATTTGGTTT
1 ATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTT
* *
14083731 TCGCGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
66 TCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
* ** * * * * *
14083796 GAAGTTTGGGGTCTCCATATTCGACAGAGGGCAGACACATAACAGATCTAACCTTCAGATGATTA
131 GAAGTCTGGCATCTCCATCTTCGACGGAGGGCAGACACATAGCAGATCCAACCTTCAGATGTTTA
* *
14083861 GACTAAAGCAG
196 TACTAAAGTAG
*
14083872 ATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTT
1 ATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTT
* * * *
14083937 TCACGTGCTTACGATGAAGCAAATCTAGGATGATTTGGCATCTCTGTATTGTCAGAAAACAAATT
66 TCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
14084002 GAAG
131 GAAG
14084006 AAGCAGATTT
Statistics
Matches: 498, Mismatches: 43, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
205 321 0.64
206 177 0.36
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (206 bp):
ATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTT
TCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
GAAGTCTGGCATCTCCATCTTCGACGGAGGGCAGACACATAGCAGATCCAACCTTCAGATGTTTA
TACTAAAGTAG
Found at i:14085570 original size:3 final size:3
Alignment explanation
Indices: 14085562--14085718 Score: 69
Period size: 3 Copynumber: 51.3 Consensus size: 3
14085552 GATATAAATT
* * *** *
14085562 TTA TTA TTA TTA TTA TT- TGTT TTA TTT TTA ACC TTA TTT TTA -TA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
*
14085606 TTA TATA TTA -TA TAA TTA TT- TTA TTA TATA TTA TT- TATA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA T-TA TTA TTA
* * *
14085651 TTA TTTA TTA TATA TTA CTT- TTCA TGAA ATA TTA TTA TT- TTA -CA
1 TTA -TTA TTA T-TA TTA -TTA TT-A T-TA TTA TTA TTA TTA TTA TTA
14085695 TTA TTA TTTA TATA TTA TTA TTA T
1 TTA TTA -TTA T-TA TTA TTA TTA T
14085719 ATTTTTACTT
Statistics
Matches: 116, Mismatches: 19, Indels: 38
0.67 0.11 0.22
Matches are distributed among these distances:
2 13 0.11
3 79 0.68
4 24 0.21
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:14085609 original size:11 final size:11
Alignment explanation
Indices: 14085595--14085826 Score: 59
Period size: 11 Copynumber: 20.5 Consensus size: 11
14085585 ATTTTTAACC
14085595 TTATTTTTATA
1 TTATTTTTATA
14085606 TTATATATTATATAA
1 TTAT-T-TT-TAT-A
14085621 TTA-TTTTATTA
1 TTATTTTTA-TA
14085632 TATATTATTTATA
1 T-TATT-TTTATA
*
14085645 TTATTATTAT-
1 TTATTTTTATA
*
14085655 TTA-TTATATA
1 TTATTTTTATA
* *
14085665 TTACTTTT-CA
1 TTATTTTTATA
* ** *
14085675 TGAAATAT-TA
1 TTATTTTTATA
*
14085685 TTATTTTACATTA
1 TTATTTT-TA-TA
*
14085698 TTATTTATATA
1 TTATTTTTATA
*
14085709 TTATTATTATA
1 TTATTTTTATA
*
14085720 TTTTTACTTGTATA
1 TTATT--TT-TATA
* *
14085734 ATATATTTAT-
1 TTATTTTTATA
*
14085744 TAATTATTTATA
1 TTATT-TTTATA
*
14085756 -TATTTATATA
1 TTATTTTTATA
*
14085766 TTATTTTACATA
1 TTATTTT-TATA
* *
14085778 TATACTTTCATA
1 T-TATTTTTATA
*
14085790 TTA-TATTATAA
1 TTATTTTTAT-A
14085801 TTA-TTTTATA
1 TTATTTTTATA
*
14085811 TTATATTTATA
1 TTATTTTTATA
*
14085822 CTATT
1 TTATT
14085827 ATATATTTTT
Statistics
Matches: 160, Mismatches: 38, Indels: 46
0.66 0.16 0.19
Matches are distributed among these distances:
9 4 0.03
10 30 0.19
11 66 0.41
12 22 0.14
13 21 0.13
14 13 0.08
15 4 0.03
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (11 bp):
TTATTTTTATA
Found at i:14085632 original size:16 final size:15
Alignment explanation
Indices: 14085602--14085851 Score: 116
Period size: 16 Copynumber: 16.6 Consensus size: 15
14085592 ACCTTATTTT
*
14085602 TATATTA-TATATTA
1 TATATTATTTTATTA
14085616 TATAATTATTTTATTA
1 TAT-ATTATTTTATTA
14085632 TATATTATTTATATTA
1 TATATTATTT-TATTA
14085648 T-TATTA-TTTATTA
1 TATATTATTTTATTA
*
14085661 TATATTACTTTTCATGA
1 TATATTA-TTTT-ATTA
* *
14085678 AATATTA--TTATTT
1 TATATTATTTTATTA
* *
14085691 TACATTATTAT-TTA
1 TATATTATTTTATTA
14085705 TATATTA--TTATTA
1 TATATTATTTTATTA
* * *
14085718 TATTTTTACTTGTATAA
1 TA-TATTA-TTTTATTA
* *
14085735 TATATT-TATTAAT-
1 TATATTATTTTATTA
*
14085748 TAT-TTA-TATATTTA
1 TATATTATTTTA-TTA
*
14085762 TATATTATTTTACATA
1 TATATTATTTTA-TTA
14085778 TATACTTTCATATTATATTA
1 TATA--TT-AT-TT-TATTA
14085798 TA-ATTATTTTA-TA
1 TATATTATTTTATTA
**
14085811 TTATATTTATACTATTA
1 -TATA-TTATTTTATTA
14085828 TATATT-TTTTATCTA
1 TATATTATTTTAT-TA
14085843 TATATTATT
1 TATATTATT
14085852 ATCATTAAAG
Statistics
Matches: 176, Mismatches: 30, Indels: 58
0.67 0.11 0.22
Matches are distributed among these distances:
12 5 0.03
13 24 0.14
14 38 0.22
15 33 0.19
16 44 0.25
17 19 0.11
18 2 0.01
19 3 0.02
20 6 0.03
21 2 0.01
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (15 bp):
TATATTATTTTATTA
Found at i:14085637 original size:30 final size:29
Alignment explanation
Indices: 14085602--14085850 Score: 123
Period size: 30 Copynumber: 8.3 Consensus size: 29
14085592 ACCTTATTTT
14085602 TATATTATATATTATATAATTATTTTATTA
1 TATATTATATATTATAT-ATTATTTTATTA
14085632 TATATTATTTATATTAT-TATTA-TTTATTA
1 TATATTA--TATATTATATATTATTTTATTA
* *
14085661 TATATTACT-T-TTCATGA-AATATTATTATTT
1 TATATTA-TATATT-AT-ATATTATT-TTATTA
*
14085691 TACATTAT-TATT-TATA-TATTATTATTA
1 TATATTATATATTATATATTATT-TTATTA
* *
14085718 TAT-TT-T-TACTTGTATAATATATTTATTA
1 TATATTATATA-TTATATATTAT-TTTATTA
*
14085746 -ATTATTTATATATTTATATATTATTTTACATA
1 TA-TA-TTATATA-TTATATATTATTTTA-TTA
14085778 TATACTT-TCATATTATATTATAATTATTTTA-TA
1 TATA-TTAT-ATA-T-TA-TAT-ATTATTTTATTA
14085811 TTATATTTATACTATTATATATT-TTTTATCTA
1 -TATA-TTATA-TATTATATATTATTTTAT-TA
14085843 TATATTAT
1 TATATTAT
14085851 TATCATTAAA
Statistics
Matches: 178, Mismatches: 12, Indels: 58
0.72 0.05 0.23
Matches are distributed among these distances:
25 3 0.02
26 6 0.03
27 21 0.12
28 16 0.09
29 18 0.10
30 35 0.20
31 14 0.08
32 35 0.20
33 7 0.04
34 11 0.06
35 12 0.07
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (29 bp):
TATATTATATATTATATATTATTTTATTA
Found at i:14085648 original size:19 final size:19
Alignment explanation
Indices: 14085596--14085839 Score: 79
Period size: 19 Copynumber: 12.5 Consensus size: 19
14085586 TTTTTAACCT
14085596 TATT-TTTATATTA-TATA
1 TATTATTTATATTATTATA
* *
14085613 TTATATAATTATTTTATTATA
1 -TAT-TATTTATATTATTATA
14085634 TATTATTTATATTATTAT-
1 TATTATTTATATTATTATA
*
14085652 TATTTATTATATATTACTTTTCA
1 TA-TTATT-TATATTA-TTAT-A
* *
14085675 TGA-AATATTATTATT-TTACA
1 T-ATTAT-TTA-TATTATTATA
14085695 TTATTATTTATA-TATTAT-
1 -TATTATTTATATTATTATA
*
14085713 TATTATATT-T-TTACTTGTA
1 TATTAT-TTATATTA-TTATA
14085732 TAATATATTTATTAATTATT-TA
1 T-AT-TATTTA-T-ATTATTATA
14085754 TA-TATTTATA-TATTAT-
1 TATTATTTATATTATTATA
**
14085770 T-TTACATATA-TACTT-TCA
1 TATTATTTATATTA-TTAT-A
*
14085788 TATTATATTATAATTATTTTA
1 TATTAT-TTAT-ATTATTATA
*
14085809 TATTATATTTATACTATTATA
1 TA-T-TATTTATATTATTATA
*
14085830 TATTTTTTAT
1 TATTATTTAT
14085840 CTATATATTA
Statistics
Matches: 172, Mismatches: 18, Indels: 71
0.66 0.07 0.27
Matches are distributed among these distances:
16 14 0.08
17 13 0.08
18 13 0.08
19 40 0.23
20 30 0.17
21 31 0.18
22 16 0.09
23 11 0.06
24 4 0.02
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (19 bp):
TATTATTTATATTATTATA
Found at i:14085745 original size:61 final size:58
Alignment explanation
Indices: 14085617--14085833 Score: 163
Period size: 57 Copynumber: 3.8 Consensus size: 58
14085607 TATATATTAT
* *
14085617 ATAAT-TATT-TTATTATATATTATTTATA-TTAT-TATTATTTATTATATAT-TACTTTTC
1 ATAATATATTATTATTAT-T-TTAATTATATTTATATATTA-TTATTACATATATAC-TTTC
* * * *
14085674 ATGA-A-A-TATTATTATTTTACATTATTATTTATATATTATTATTATATTTTTACTTGT-
1 ATAATATATTATTATTATTTTA-ATTA-TATTTATATATTATTATTACATATATACTT-TC
14085731 ATAATATATTTATTAATTA-TTT-A-TATATTTATATATTATT-TTACATATATACTTTC
1 ATAATATA-TTATT-ATTATTTTAATTATATTTATATATTATTATTACATATATACTTTC
* *
14085787 ATATTATATTATAATTATTTTATATTATATTTATACTATTATATATT
1 ATAATATATTATTATTATTTTA-ATTATATTTATA-TATTAT-TATT
14085834 TTTTATCTAT
Statistics
Matches: 130, Mismatches: 9, Indels: 38
0.73 0.05 0.21
Matches are distributed among these distances:
54 7 0.05
55 13 0.10
56 28 0.22
57 38 0.29
58 22 0.17
59 8 0.06
60 1 0.01
61 9 0.07
62 4 0.03
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (58 bp):
ATAATATATTATTATTATTTTAATTATATTTATATATTATTATTACATATATACTTTC
Found at i:14085779 original size:24 final size:23
Alignment explanation
Indices: 14085752--14085819 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 23
14085742 ATTAATTATT
14085752 TATATATTTATATATTATTTTACA
1 TATATATTT-TATATTATTTTACA
* * *
14085776 TATATACTTTCATATTATATTATA
1 TATATA-TTTTATATTATTTTACA
14085800 -AT-TATTTTATATTATATTTA
1 TATATATTTTATATTAT-TTTA
14085820 TACTATTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
21 10 0.27
22 5 0.14
23 2 0.05
24 17 0.46
25 3 0.08
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (23 bp):
TATATATTTTATATTATTTTACA
Found at i:14085796 original size:26 final size:23
Alignment explanation
Indices: 14085752--14085818 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 23
14085742 ATTAATTATT
14085752 TATATATTTATA-TATTATTTTACA
1 TATATATTTATATTA-TATTTTA-A
*
14085776 TATATACTTTCATATTATATTATAA
1 TATATA-TTT-ATATTATATTTTAA
14085801 T-TAT-TTTATATTATATTT
1 TATATATTTATATTATATTT
14085819 ATACTATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
21 10 0.26
22 3 0.08
24 9 0.24
25 5 0.13
26 9 0.24
27 2 0.05
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TATATATTTATATTATATTTTAA
Found at i:14110597 original size:20 final size:20
Alignment explanation
Indices: 14110559--14110597 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14110549 AAGATTTAAT
* *
14110559 TTTTTTTTAAGTTTCATTTG
1 TTTTGTTTAAATTTCATTTG
*
14110579 TTTTGTTTAAATTTTATTT
1 TTTTGTTTAAATTTCATTT
14110598 TTATGTTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.08, T:0.72
Consensus pattern (20 bp):
TTTTGTTTAAATTTCATTTG
Found at i:14120845 original size:109 final size:110
Alignment explanation
Indices: 14120721--14120971 Score: 357
Period size: 109 Copynumber: 2.3 Consensus size: 110
14120711 ATTTCTATGA
*
14120721 ATTTGTTGAGTTTATTTATTTCAAAATTTATTACATTAGTGTAGATTTGAATTCTTAGATTTTGG
1 ATTTGTTGAGTTTATTTATTTCAAAATTTATTACATTAGTGTAGATTCGAATTCTTAGATTTT-G
*
14120786 T-GATTAGTAGATATACCATTAAAGGTTTTAAAATTTTAATTTG-G
65 TAGATTACTAGATATACCATTAAAGGTTTTAAAATTTTAATTTGAG
* * *
14120830 ATTTGTTGAGTTTATTTATTTCAAAATTTTTTACATTAGTTTAGATTCGAATTCTTAGATTTTTT
1 ATTTGTTGAGTTTATTTATTTCAAAATTTATTACATTAGTGTAGATTCGAATTCTTAGATTTTGT
* * * *
14120895 AGATTACTAGATGTACCATTAAAGGTTTTAAATTTTTATTTTGAAT
66 AGATTACTAGATATACCATTAAAGGTTTTAAAATTTTAATTTG-AG
*
14120941 ATTTCTTTGAGTTTATTT-TTT-AAAATTTATT
1 ATTT-GTTGAGTTTATTTATTTCAAAATTTATT
14120972 TTCAACATAA
Statistics
Matches: 127, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
108 1 0.01
109 98 0.77
110 9 0.07
111 7 0.06
112 12 0.09
ACGTcount: A:0.30, C:0.05, G:0.13, T:0.52
Consensus pattern (110 bp):
ATTTGTTGAGTTTATTTATTTCAAAATTTATTACATTAGTGTAGATTCGAATTCTTAGATTTTGT
AGATTACTAGATATACCATTAAAGGTTTTAAAATTTTAATTTGAG
Found at i:14125185 original size:48 final size:48
Alignment explanation
Indices: 14125112--14125342 Score: 181
Period size: 48 Copynumber: 4.9 Consensus size: 48
14125102 AGGATATGCA
* *
14125112 TGATCCCATGTAAGATCATGCCTGGGACATGGCATTGGCATCAATGTG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATGTG
* *
14125160 TGATCCCATGTAAGACCATGTCTGGGACATGTCATTGGCATTAA-GATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATG-TG
* ** * * * **
14125208 AGA-CATTATGTAAGAGCATAG-CTAGG-CTATCGGC-TTCG-AT--ATGCA
1 TGATC-CCATGTAAGACCAT-GTCTGGGAC-AT-GGCATTGGCATCAATGTG
* * *
14125253 TGACCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATGTG
* * * * *
14125301 TGATCCCATGAAAGACCATATCTGGGATATGGAATTGACATC
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
14125343 CTACTATGTG
Statistics
Matches: 142, Mismatches: 28, Indels: 26
0.72 0.14 0.13
Matches are distributed among these distances:
44 4 0.03
45 23 0.16
46 5 0.04
47 5 0.04
48 102 0.72
49 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATGTG
Found at i:14133900 original size:258 final size:258
Alignment explanation
Indices: 14133443--14133962 Score: 986
Period size: 258 Copynumber: 2.0 Consensus size: 258
14133433 GTTTCACAAT
14133443 TTCATCTTCCTTCATCTTTAGATTTTCAAAGTCCCTTCTCAAATTCAGTAGCTGTTGCTATCTTG
1 TTCATCTTCCTTCATCTTTAGATTTTCAAAGTCCCTTCTCAAATTCAGTAGCTGTTGCTATCTTG
*
14133508 TTCTTCCAATCCATTGGAACTCCTCTTTCAGCCTATCCCTGGCTTGCTTTGGTGACTCACAAGCC
66 TTCTTCCAATCCATTGGAACTCCTCTTTCAGCCTATCCCAGGCTTGCTTTGGTGACTCACAAGCC
14133573 ATGATTCTTGTGAAGATCACATCAGACACACTGTTTTGGATGCATGACATGGCCTTGTGTCTTTT
131 ATGATTCTTGTGAAGATCACATCAGACACACTGTTTTGGATGCATGACATGGCCTTGTGTCTTTT
*
14133638 GGTTCTTTCATCTACATGTTGTCTTATCTAAGCCACTATTGGATTGGCTCTTAAAGGTGCTGG
196 GGTTCTTTCATCTACATGCTGTCTTATCTAAGCCACTATTGGATTGGCTCTTAAAGGTGCTGG
* *
14133701 TTCATCTTCCTTCATCTTTAGATTTTTAAAGTCTCTTCTCAAATTCAGTAGCTGTTGCTATCTTG
1 TTCATCTTCCTTCATCTTTAGATTTTCAAAGTCCCTTCTCAAATTCAGTAGCTGTTGCTATCTTG
* *
14133766 TTCTTTCAATCCATTGGAACTCTTCTTTCAGCCTATCCCAGGCTTGCTTTGGTGACTCACAAGCC
66 TTCTTCCAATCCATTGGAACTCCTCTTTCAGCCTATCCCAGGCTTGCTTTGGTGACTCACAAGCC
14133831 ATGATTCTTGTGAAGATCACATCAGACACACTGTTTTGGATGCATGACATGGCCTTGTGTCTTTT
131 ATGATTCTTGTGAAGATCACATCAGACACACTGTTTTGGATGCATGACATGGCCTTGTGTCTTTT
14133896 GGTTCTTTCATCTACATGCTGTCTTATCTAAGCCACTATTGGATTGGCTCTTAAAGGTGCTGG
196 GGTTCTTTCATCTACATGCTGTCTTATCTAAGCCACTATTGGATTGGCTCTTAAAGGTGCTGG
14133959 TTCA
1 TTCA
14133963 ACATCTAAGT
Statistics
Matches: 256, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
258 256 1.00
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.39
Consensus pattern (258 bp):
TTCATCTTCCTTCATCTTTAGATTTTCAAAGTCCCTTCTCAAATTCAGTAGCTGTTGCTATCTTG
TTCTTCCAATCCATTGGAACTCCTCTTTCAGCCTATCCCAGGCTTGCTTTGGTGACTCACAAGCC
ATGATTCTTGTGAAGATCACATCAGACACACTGTTTTGGATGCATGACATGGCCTTGTGTCTTTT
GGTTCTTTCATCTACATGCTGTCTTATCTAAGCCACTATTGGATTGGCTCTTAAAGGTGCTGG
Found at i:14136755 original size:2 final size:2
Alignment explanation
Indices: 14136748--14136779 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
14136738 ATATCTAAAT
14136748 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14136780 GGGAGGAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14142993 original size:46 final size:47
Alignment explanation
Indices: 14142926--14143040 Score: 148
Period size: 46 Copynumber: 2.5 Consensus size: 47
14142916 AGACTCACCA
* *
14142926 CAGCTCGTAAA-AGCTTACTGTTTCAACTCATTGGAGCTTACCGATT-
1 CAGCTCG-AAAGAGCTTACTGTTTCAACTCAATAGAGCTTACCGATTC
* *
14142972 CAGCTCGAAAGAGCTTACTG-TTCAGCTCAATAGAGCTTACCGTTTC
1 CAGCTCGAAAGAGCTTACTGTTTCAACTCAATAGAGCTTACCGATTC
14143018 CAGCTC-AATAGAGCTTACTGTTT
1 CAGCTCGAA-AGAGCTTACTGTTT
14143041 ATCATTTCAG
Statistics
Matches: 61, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
45 26 0.43
46 33 0.54
47 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (47 bp):
CAGCTCGAAAGAGCTTACTGTTTCAACTCAATAGAGCTTACCGATTC
Found at i:14142998 original size:22 final size:23
Alignment explanation
Indices: 14142959--14143035 Score: 104
Period size: 22 Copynumber: 3.3 Consensus size: 23
14142949 CAACTCATTG
14142959 GAGCTTACCGATTCAGCTCGAA-A
1 GAGCTTACCGATTCAGCTC-AATA
*
14142982 GAGCTTACTG-TTCAGCTCAATA
1 GAGCTTACCGATTCAGCTCAATA
*
14143004 GAGCTTACCGTTTCCAGCTCAATA
1 GAGCTTACCGATT-CAGCTCAATA
14143028 GAGCTTAC
1 GAGCTTAC
14143036 TGTTTATCAT
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
21 2 0.04
22 18 0.37
23 11 0.22
24 18 0.37
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (23 bp):
GAGCTTACCGATTCAGCTCAATA
Found at i:14143026 original size:24 final size:23
Alignment explanation
Indices: 14142937--14143040 Score: 122
Period size: 23 Copynumber: 4.5 Consensus size: 23
14142927 AGCTCGTAAA
* * *
14142937 AGCTTACTGTTTCAACTCATTGG
1 AGCTTACTGTTTCAGCTCAATAG
* *
14142960 AGCTTACCGATTCAGCTCGAA-AG
1 AGCTTACTGTTTCAGCTC-AATAG
14142983 AGCTTACTG-TTCAGCTCAATAG
1 AGCTTACTGTTTCAGCTCAATAG
*
14143005 AGCTTACCGTTTCCAGCTCAATAG
1 AGCTTACTGTTT-CAGCTCAATAG
14143029 AGCTTACTGTTT
1 AGCTTACTGTTT
14143041 ATCATTTCAG
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
21 2 0.03
22 18 0.26
23 26 0.38
24 23 0.33
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (23 bp):
AGCTTACTGTTTCAGCTCAATAG
Found at i:14144676 original size:6 final size:6
Alignment explanation
Indices: 14144656--14144689 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
14144646 ACCAAGGCTT
*
14144656 CTTGCG CTTGTAG CTTGAG CTTGAG CTTGAG CTT
1 CTTGAG CTTG-AG CTTGAG CTTGAG CTTGAG CTT
14144690 TCTTTGCTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.12, C:0.21, G:0.29, T:0.38
Consensus pattern (6 bp):
CTTGAG
Found at i:14145328 original size:3 final size:3
Alignment explanation
Indices: 14145314--14145350 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
14145304 AGCAAAGACA
*
14145314 GGT GGT GAT GGT GGT GGT GGT GGT GGT GGT GGT GGT G
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT G
14145351 AGAAACTCAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.03, C:0.00, G:0.65, T:0.32
Consensus pattern (3 bp):
GGT
Found at i:14147678 original size:19 final size:20
Alignment explanation
Indices: 14147635--14147690 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
14147625 ATTGGGTCTT
14147635 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
14147655 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
14147674 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
14147691 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:14149856 original size:3 final size:3
Alignment explanation
Indices: 14149848--14149883 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
14149838 AGCACCACAC
14149848 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14149884 CCATAGCAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:14152829 original size:20 final size:19
Alignment explanation
Indices: 14152804--14152859 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 19
14152794 ATTGGGTCTT
*
14152804 GCCCATATTAACACAGTTGG
1 GCCCATATTAAAACAGTT-G
* * *
14152824 GCCCATTTTAATACAATTG
1 GCCCATATTAAAACAGTTG
*
14152843 GCCCATAATAAAACAGT
1 GCCCATATTAAAACAGT
14152860 CTCATATGAT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (19 bp):
GCCCATATTAAAACAGTTG
Found at i:14155029 original size:3 final size:3
Alignment explanation
Indices: 14155021--14155056 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
14155011 AACACCACAT
14155021 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14155057 CCATAGCAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:14159715 original size:12 final size:12
Alignment explanation
Indices: 14159694--14159739 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
14159684 TCACAAACAA
*
14159694 GCTCGCTTATTG
1 GCTCGTTTATTG
**
14159706 GCTCGTTTATAA
1 GCTCGTTTATTG
14159718 GCTCGTTTATTG
1 GCTCGTTTATTG
*
14159730 ACTCGTTTAT
1 GCTCGTTTAT
14159740 GACTCATTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.46
Consensus pattern (12 bp):
GCTCGTTTATTG
Found at i:14159719 original size:24 final size:24
Alignment explanation
Indices: 14159692--14159739 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
14159682 GTTCACAAAC
*
14159692 AAGCTCGCTTATTGGCTCGTTTAT
1 AAGCTCGCTTATTGACTCGTTTAT
*
14159716 AAGCTCGTTTATTGACTCGTTTAT
1 AAGCTCGCTTATTGACTCGTTTAT
14159740 GACTCATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (24 bp):
AAGCTCGCTTATTGACTCGTTTAT
Found at i:14159744 original size:11 final size:11
Alignment explanation
Indices: 14159707--14159750 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
14159697 CGCTTATTGG
*
14159707 CTCGTTTATAA
1 CTCGTTTATGA
14159718 GCTCGTTTATTGA
1 -CTCGTTTA-TGA
14159731 CTCGTTTATGA
1 CTCGTTTATGA
*
14159742 CTCATTTAT
1 CTCGTTTAT
14159751 TTATTAATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 11 0.38
12 16 0.55
13 2 0.07
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (11 bp):
CTCGTTTATGA
Found at i:14165814 original size:21 final size:21
Alignment explanation
Indices: 14165776--14165815 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14165766 ATTTTTTAGA
*
14165776 ATAATACAAATGTGTTAATAT
1 ATAATACAAATATGTTAATAT
14165797 ATAATTACAAATAT-TTAAT
1 ATAA-TACAAATATGTTAAT
14165816 TGTTATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (21 bp):
ATAATACAAATATGTTAATAT
Found at i:14166852 original size:46 final size:46
Alignment explanation
Indices: 14166800--14166893 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
14166790 ATCTTAACAA
14166800 TCAATCATCTCTCAATGATTTAAGAAAATAGTTGACTAAATTTCTT
1 TCAATCATCTCTCAATGATTTAAGAAAATAGTTGACTAAATTTCTT
14166846 TCAATCATCTCTCAATGATTTAAGAAAATAGTTGACTAAATTTCTT
1 TCAATCATCTCTCAATGATTTAAGAAAATAGTTGACTAAATTTCTT
14166892 TC
1 TC
14166894 TTCTTCAGGG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (46 bp):
TCAATCATCTCTCAATGATTTAAGAAAATAGTTGACTAAATTTCTT
Found at i:14167571 original size:53 final size:53
Alignment explanation
Indices: 14167486--14167590 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 53
14167476 TCGTTTTTCT
*
14167486 CAAGAATTCAAACCAAGCATCAAATGGAGTCTTC-CTCTCCTGCACAGCCTTGA
1 CAAGAATTCAAACCAAGCATCAAATGGAGTCTTCTC-CTCCTGCACAACCTTGA
* * *
14167539 CAAGCATTCAAACCAAGCTTCAAATGGAGTCTTCTCCTCCTTCACAACCTTG
1 CAAGAATTCAAACCAAGCATCAAATGGAGTCTTCTCCTCCTGCACAACCTTG
14167591 GTTGGCAATC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
53 46 0.98
54 1 0.02
ACGTcount: A:0.30, C:0.31, G:0.13, T:0.25
Consensus pattern (53 bp):
CAAGAATTCAAACCAAGCATCAAATGGAGTCTTCTCCTCCTGCACAACCTTGA
Found at i:14180187 original size:26 final size:26
Alignment explanation
Indices: 14180150--14180233 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
14180140 TGATACAAAT
* *
14180150 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
14180176 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
14180202 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
14180228 TGATAA
1 TGATAA
14180234 GAATATCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:14182265 original size:137 final size:137
Alignment explanation
Indices: 14182019--14182442 Score: 812
Period size: 137 Copynumber: 3.1 Consensus size: 137
14182009 GAGTAGTCTC
14182019 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
14182084 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
14182149 ACTGTTA
131 ACTGTTA
*
14182156 CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
14182221 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
14182286 ACTGTTA
131 ACTGTTA
14182293 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
14182358 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
14182423 ACTGTTA
131 ACTGTTA
**
14182430 CCTGAATGGGCTT
1 CCCAAATGGGCTT
14182443 AGGCCCAATA
Statistics
Matches: 282, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 282 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Done.